Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.1.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.1248	0.851
27DAP/17DAP	0.99222	1
39DAP/27DAP	0.82996	0.458
41DAP/39DAP	0.81901	0.333
42DAP/41DAP	1.22638	0.825
43DAP/42DAP	1.07478	0.991
47DAP/43DAP	1.24822	0.334
52DAP/47DAP	0.80585	0.526
57DAP/52DAP	1.19484	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22288	0.055
17DAP/reference	0.80565	0.138
27DAP/reference	0.85881	0.201
39DAP/reference	0.84954	0.174
41DAP/reference	0.65812	0.01
42DAP/reference	0.97747	0.348
43DAP/reference	0.89809	0.148
47DAP/reference	1.40689	0.002
52DAP/reference	2.03958	0.014
57DAP/reference	1.35273	0.012

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13933	0.218
27DAP/17DAP	0.96476	0.748
39DAP/27DAP	0.75519	0.063
41DAP/39DAP	1.20555	0.719
42DAP/41DAP	0.9053	0.382
43DAP/42DAP	0.82259	0.027
47DAP/43DAP	0.95805	0.815
52DAP/47DAP	0.96919	0.886
57DAP/52DAP	0.92432	0.371
57DAP/7DAP	1.40367	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.95356	0.024
17DAP/reference	1.63443	0.009
27DAP/reference	1.05335	0.804
39DAP/reference	1.03694	0.705
41DAP/reference	1.10738	0.232
42DAP/reference	0.99994	0.791
43DAP/reference	0.98358	0.502
47DAP/reference	1.09827	0.525
52DAP/reference	0.85693	0.15
57DAP/reference	0.73966	0.012

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13564	0.802
17DAP/reference	1.23434	0.229
27DAP/reference	1.38043	0.126
39DAP/reference	1.20974	0.377
41DAP/reference	1.22868	0.015
42DAP/reference	1.24907	0.079
43DAP/reference	0.7266	0.028
47DAP/reference	0.91512	0.094
52DAP/reference	0.97255	0.469
57DAP/reference	0.71768	0.008

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.18983	0.015
17DAP/reference	1.40083	0.17
27DAP/reference	0.96533	0.516
39DAP/reference	1.15586	0.041
41DAP/reference	0.90788	0.086
42DAP/reference	1.00833	0.816
43DAP/reference	1.16745	0.459
47DAP/reference	0.89318	0.231
52DAP/reference	1.17786	0.657
57DAP/reference	2.29599	0.007

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.18004	0.945
26DAP/20DAP	0.83711	0.317
34DAP/26DAP	1.09013	1
51DAP/34DAP	1.0261	0.962
52DAP/51DAP	1.34493	0.077
53DAP/52DAP	1.65232	0.738
55DAP/53DAP	1.08712	0.599
57DAP/55DAP	0.82139	0.297
62DAP/57DAP	0.77504
68DAP/62DAP	0.81997	0.81
68DAP/14DAP	2.26796	0.469

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.44148	0.055

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.8426	0.301
Mature Green Tomato/Ripe Tomato	2.21771	0.032
Immature Eggplant/Mature Eggplant	0.65551	0.067
Ripe Pepper/Ripe Tomato	0.74309	0.293
Mature Eggplant/Ripe Tomato	0.44473	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.28937	0.591
1-1-2/M82	1.07163	1
12-2/M82	1.18732	1
12-4/M82	1.18925	1
1-3/M82	2.06029	0.479
2-1-1/M82	0.92929	0.784
2-1/M82	1.21881	0.312
2-6/M82	0.89538	1
3-2/M82	1.21322	1
4-1-1/M82	1.14267	0.915
4-1/M82	1.44937	1
4-3-2/M82	1.03384	0.241
4-3/M82	1.12612	1
5-3/M82	1.44051	0.467
6-2/M82	1.13797	1
6-3/M82	1.25288	1
7-1/M82	1.16302	0.598
7-2/M82	1.16598	0.385
9-3-2/M82	1.09069	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.00685	1
IL2-6/WTpooled	1.05133	0.788
IL7-5/WTpooled	1.30834	0.792
IL7-3/WTpooled	0.81938	0.294
IL12-4/WTpooled	1.10334	1
IL1-4/WTpooled	1.14937	1
WT/WTpooled	0.98396	1

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants

hybridization	ratio	FDR (corrected p value)
10 h post inoculation	1.03357	1

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95562	1
DC3000/delta hrp 6h	0.97868	0.95
DC3000/delta hrp 12h	1.09106	1
DC3000/delta hrp 24h	1.04694	0.604

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.38418	0.134
DC3000 delta B/DC3000 delta AB	1.27162	0.192

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.8075	1
Exp 36h	1.35059	0.489
Exp 60h	1.20554	1

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	1.1191	1
Var 0h	1.04783	1
Var 12h I row2-row1	0.86304	0.418
Var 12h NI row2-row1	1.06962	0.34
Var 36h I row2-row1	1.05374	1
Var 36h NI row2-row1	0.90927	0.743
Var 60h I row2-row1	0.93233	0.439
Var 60h NI row2-row1	0.88904	0.866
Time course 0hI-0hNI	1.05276	0.852
Time course 12hI-12hNI	0.98048	0.893
Time course 36hI-36hNI	1.18715	0.031
Time course 60hI-60hNI	1.69918	0.008

Experiment: Transcriptional profiling of the tomato fruit pericarp tissue: fruits overexpressing yeast ySAMdc gene and controls

hybridization	ratio	FDR (corrected p value)
transgenic ySAMdc/azygous control (mature green)	1.09754	0.384
transgenic ySAMdc/azygous control (breaker)	1.14453	0.248
transgenic ySAMdc/azygous control (red)	0.86888	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.38489	0.035

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.85655	0.238

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.99379	1
Manapal/WT (break)	0.82038	1
Manapal/WT (red)	0.75982	0.181